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CHANGELOG.rst

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5.2.5 - 02/05/25

  • Get python versions from python_versions.json

5.2.4 - 01/28/25

  • Bugfix: change PAFs to load with a "cause_specific_mortality_rate" affected_measure rather than "excess_mortality_rate"

5.2.3 - 12/30/24

  • Bugfix: better handle 'all' years when requesting mean data
  • Implement unit tests for core.get_data()
  • Skip broken unmocked sbp PAF tests in test_get_measure.py

5.2.2 - 11/13/24

  • Bugfix to implement data type requests for remaining interface tests

5.2.1 - 11/13/24

  • Add more get_measure tests: sequelae (mocked), risk factors, covariates

5.2.0 - 11/07/24

  • Add framework for getting mean data
  • Add mean data support for getting incidence, prevalence, and birth prevalence
  • Add a few tests to be run in CI against get_measure

5.1.0 - 11/04/24

  • Drop support for Python 3.9

5.0.7 - 09/13/24

  • Process exposure parametrized relative risks

5.0.6 - 08/21/24

  • Use script to install dependencies in CI

5.0.5 - 08/02/24

  • Fix CI bug when installing upstream dependencies

5.0.4 - 07/16/24

  • Fix bug in processing locations when pulling disability weights

5.0.3 - 07/12/24

  • Fix bug in processing year ID of disability weight

5.0.2 - 07/01/24

  • Fix bug in validation of the year parameter

5.0.1 - 06/13/24

  • Fix bug in scrub_location

5.0.0 - 05/20/24

  • Pull GBD 2021 data
  • Add functionality to pull multiple locations at once

4.1.4 - 01/11/24

  • Remove erroneously merged get_draws_kwargs argument

4.1.3 - 01/09/24

  • Update PyPI to 2FA with trusted publisher

4.1.2 - 10/16/23

  • Drop support for python 3.8

4.1.1 - 07/13/23

  • Update pins
  • Changes version metadata to use setuptools_scm
  • Adds custom get_draws kwargs to pass through to vivarium_gbd_access

4.1.0 - 06/01/23

  • Update pins
  • Bugfix PAF validation
  • Support Python 3.8-3.11

4.0.10 - 12/27/22

  • Update CI to build with python 3.8-3.10
  • Update codeowners

4.0.9 - 11/28/22

  • Add BMI in adults to list of known risk factors with negative PAFs

4.0.8 - 07/25/22

  • Remove unneeded column when loading PAFs
  • Add CODEOWNERS
  • Warn instead of fail with extra columns when validating

4.0.7 - 05/05/22

  • Update internal dependencies.
  • Fix black/click version discrepancy.

4.0.6 - 02/15/22

  • Fix bug in covariate id parsing to int.
  • Autoformat code with black and isort.
  • Add black and isort checks to CI.

4.0.5 - 02/12/22

  • Adjust max population upper bounds to allow non-national outputs.
  • Squash some future warnings.
  • Modernize CI.
  • Add PR template.
  • Update to BSD 3-clause license.
  • Squash warnings in doc building
  • Fix remote doc builds.

4.0.4 - 05/26/21

  • Add special case relaxing negative PAF restrictions for child wasting

4.0.3 - 06/18/21

  • Bugfix release update dependencies

4.0.2 - 01/21/21

  • Bugfix release, special case for LBWSG data

4.0.1 - 01/6/21

  • Bugfix release, fix deployment

4.0.0 - 01/5/21

  • Update for GBD 2019
  • Added tests for GBD version changes (not run under CI)

3.1.1 - 01/14/20

  • Fix bug in hierarchical data sorting

3.1.0 - 11/18/19

  • Update information about pulling data from gbd.
  • Move data artifact from vivarium public health to vivarium.
  • Data exclusion for moderate wasting with edema.
  • Change 'age_group_start' and 'age_group_end' to 'age_start' and 'age_end'.
  • Consistent naming of rate data.
  • Get rid of old multi-build artifact code.
  • Add the core-maths package as a dependency.

3.0.1 - 07/16/19

  • Allow for wider YLL age ranges than YLD with warning instead of error.
  • Add special cases for a handful of causes with very high excess mortality.
  • Bugfix for validating deaths data for sex-specific causes.

3.0.0 - 06/18/19

  • Use indexes for artifact data.
  • Bugfixes for lbwsg.
  • Expand tmrel code to pull data when available.
  • Memory optimizations.
  • CI script to properly handle dependencies.
  • Update metadata.
  • Shift data produce to be wide on draws.
  • Update component manager usage.
  • Correct import guard issue.
  • Special case for iron deficiency exposure sd.

2.0.3 - 03/29/19

  • Update memory requirements for building artifacts.
  • Fix multi-build artifact.
  • Add integration tests.
  • Make reshape faster, idempotent, and move to get_data function.
  • Various bugfixes.

2.0.2 - 02/24/19

  • Make sure demographic dimensions are in every artifact.
  • Expose public API
  • Remove forecast vestiges.
  • Add top level function to pull raw GBD data.
  • Update memory limits on artifact builder.

2.0.1 - 02/14/19

  • Update dependencies

2.0.0 - 02/14/19

  • Rewrite vivarium inputs for GBD 2017.

1.0.18 - 01/04/19

  • Add support for multi-location artifacts.
  • Add CI branch synchronization.

1.0.17 - 12/20/18

  • Bugfix to normalize disability weight data.

1.0.16 - 12/20/18

  • Build in functionality for pulling forecasting data for demography and diarrhea etiologies.
  • Add functions for coverage and effects for health technologies.
  • Allow pulling disability weight by cause.
  • Update PAF and RR data format to support excess mortality effects.

1.0.15 - 11/16/18

  • Dependency mismatch

1.0.14 - 11/15/18

  • Update documentation dependencies

1.0.13 - 11/15/18

  • Add tool to locally build artifacts
  • Setup artifact filter terms in configuration.
  • Remove mean columns for age and year.
  • Allow paf of 1 data.
  • Allow artifact building on the new cluster.

1.0.12 - 11/08/18

  • Include a new version of vivarium_gbd_access version

1.0.11 - 11/07/18

  • Pull pafs by risk instead of by cause.

1.0.10 - 11/05/18

  • Make entity/location/measure arguments to functions in core singular.
  • Fix artifact builder bug causing disappearing builds.

1.0.9 - 10/26/18

  • Added kind attribute to mapping objects

1.0.8 - 10/26/18

  • Fix bug in artifact builder to properly store processed keys.
  • Switch artifact builder to only load needed data.
  • Return age_group_start and age_group_end to support order0 interpolation
  • Bugfix in locations with apostrophes

1.0.7 - 10/16/18

  • Add support for arbitrary covariates.
  • PAF naming bugfix

1.0.6 - 10/09/18

  • Update dependencies

1.0.5 - 10/09/18

  • Switch from true incidence to incidence hazard
  • Fix in artifact builder to get correct causes
  • Add affected_risk_factors to risks

1.0.4 - 09/28/18

  • Added measles covariates

1.0.3 - 09/25/18

  • Update for coverage gap exposure/rr/paf
  • Add support for building artifacts for locations with spaces.
  • Bugfixes around measles

1.0.2 - 09/12/18

  • Add logging to artifact builder.
  • Various bugfixes in artifact builder.
  • Bugfix for smoking prevalence w/r/t tuberculosis

1.0.1 - 8/22/18

  • Move all file handling to artifact in public health
  • Rewrite loaders to be usable for individual measures
  • Make vivarium_gbd_access mockable
  • Rewrite artifact build script to support multiple locations
  • Build ArtifactPassthrough
  • Switch to new aux data source

1.0.0 - 7/31/18

  • Initial Release